| Publication Information (EuropePMC) | |
| Title | Genomic risk prediction of coronary artery disease in women with breast cancer: a prospective cohort study. |
| PubMed ID | 34593009(Europe PMC) |
| doi | 10.1186/s13058-021-01465-0 |
| Publication Date | Sept. 30, 2021 |
| Journal | Breast Cancer Res |
| Author(s) | Liou L, Kaptoge S, Dennis J, Shah M, Tyrer J, Inouye M, Easton DF, Pharoah PDP. |
| Polygenic Score ID & Name | PGS Publication ID (PGP) | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants |
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link) |
|---|---|---|---|---|---|---|
| PGS000018 (metaGRS_CAD) |
PGP000007 | Inouye M et al. J Am Coll Cardiol (2018) |
Coronary artery disease | coronary artery disease | 1,745,179 | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000018/ScoringFiles/PGS000018.txt.gz | |
| PGS000012 (GRS49K) |
PGP000005 | Abraham G et al. Eur Heart J (2016) |
Coronary artery disease | coronary artery disease | 49,310 | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000012/ScoringFiles/PGS000012.txt.gz |
|
PGS Performance Metric ID (PPM) |
Evaluated Score |
PGS Sample Set ID (PSS) |
Performance Source | Trait |
PGS Effect Sizes (per SD change) |
Classification Metrics | Other Metrics | Covariates Included in the Model |
PGS Performance: Other Relevant Information |
|---|---|---|---|---|---|---|---|---|---|
| PPM005152 | PGS000018 (metaGRS_CAD) |
PSS003597| Multi-ancestry (including European)| 12,413 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease survival in individuals with breast cancer | HR: 1.36 [1.23, 1.5] | — | — | Age | SNPs with imputation quality scores of less than 0.3 and ambiguous strand SNPs (A/T and G/C pairs) were excluded from PGS000018. |
| PPM005153 | PGS000018 (metaGRS_CAD) |
PSS003596| European Ancestry| 8,946 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease in individuals with breast cancer | HR: 1.36 [1.23, 1.51] | — | — | Age at diagnosis, genotype array, PCs(1-8) | SNPs with imputation quality scores of less than 0.3 and ambiguous strand SNPs (A/T and G/C pairs) were excluded from PGS000018. |
| PPM005154 | PGS000018 (metaGRS_CAD) |
PSS003596| European Ancestry| 8,946 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease in individuals with breast cancer | HR: 1.34 [1.21, 1.49] | — | — | Age at diagnosis, genotype array, PCs(1-8), body mass index, smoking | SNPs with imputation quality scores of less than 0.3 and ambiguous strand SNPs (A/T and G/C pairs) were excluded from PGS000018. |
| PPM005155 | PGS000018 (metaGRS_CAD) |
PSS003596| European Ancestry| 8,946 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease in individuals with breast cancer | HR: 1.34 [1.21, 1.48] | — | — | Age at diagnosis, genotype array, PCs(1-8), body mass index, smoking, sociodemographic variables | SNPs with imputation quality scores of less than 0.3 and ambiguous strand SNPs (A/T and G/C pairs) were excluded from PGS000018. |
| PPM005156 | PGS000018 (metaGRS_CAD) |
PSS003596| European Ancestry| 8,946 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease in individuals with breast cancer | HR: 1.33 [1.2, 1.48] | — | — | Age at diagnosis, genotype array, PCs(1-8), body mass index, smoking, sociodemographic variables, medical variables | SNPs with imputation quality scores of less than 0.3 and ambiguous strand SNPs (A/T and G/C pairs) were excluded from PGS000018. |
| PPM005157 | PGS000018 (metaGRS_CAD) |
PSS003596| European Ancestry| 8,946 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease in individuals with breast cancer | HR: 1.33 [1.2, 1.47] | — | — | Age at diagnosis, genotype array, PCs(1-8), body mass index, smoking, sociodemographic variables, medical variables, oncotherapies | SNPs with imputation quality scores of less than 0.3 and ambiguous strand SNPs (A/T and G/C pairs) were excluded from PGS000018. |
| PPM005158 | PGS000012 (GRS49K) |
PSS003596| European Ancestry| 8,946 individuals |
PGP000248 | Liou L et al. Breast Cancer Res (2021) |Ext. |
Reported Trait: Incident coronary artery disease in individuals with breast cancer | HR: 1.31 [1.19, 1.44] | — | — | Age at diagnosis, genotype array, PCs(1-8), body mass index, smoking, sociodemographic variables, medical variables, oncotherapies | — |
|
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods | Participant Follow-up Time | Sample Numbers | Age of Study Participants | Sample Ancestry | Additional Ancestry Description | Cohort(s) | Additional Sample/Cohort Information |
|---|---|---|---|---|---|---|---|---|
| PSS003596 | All individuals had breast cancer. Cases were individuals who suffered incident coronary artery disease (CAD) events. Incident CAD events were defined as a composite endpoint of unstable angina, myocardial infarction, or death due to complications following myocardial infarction according to the International Statistical Classification of Diseases and Related Health Problems 10th Revision (ICD-10 codes): I21, I22, I23, I25 and I25. | — | [ ,
0.0 % Male samples |
— | European | — | SEARCH | — |
| PSS003597 | All individuals had breast cancer. Cases were individuals who suffered incident coronary artery disease (CAD) events. Incident CAD events were defined as a composite endpoint of unstable angina, myocardial infarction, or death due to complications following myocardial infarction according to the International Statistical Classification of Diseases and Related Health Problems 10th Revision (ICD-10 codes): I21, I22, I23, I25 and I25. | Median = 10.3 years | [ ,
0.0 % Male samples |
— | European, African unspecified, Asian unspecified, Not reported | European = 11,995, African unspecified = 1, Asian unspecified = 2, Not reported = 413 | SEARCH | — |